genome.fa.s13.2.7.7.80.10.50.1000.182.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   

This is table  182  of  199  ( 23770 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52881155--52881200	23	2.0	24	82	4	58	32	26	0	41	1.56
52888997--52889028	12	2.7	12	90	0	55	6	21	43	28	1.77
52894871--52894913	21	2.0	21	100	0	86	44	13	13	27	1.83
52897737--52897792	22	2.5	22	97	0	103	33	14	25	26	1.94
52902177--52902242	33	2.0	33	100	0	132	33	18	21	27	1.96
52904081--52904127	20	2.3	21	78	7	53	65	6	0	27	1.16
52905414--52905442	2	14.5	2	100	0	58	48	0	0	51	1.00
52907003--52907078	9	8.4	9	86	0	107	42	22	10	25	1.85
52907002--52907078	27	2.9	27	92	0	127	42	22	10	24	1.84
52907181--52907224	18	2.4	18	88	0	61	13	2	43	40	1.57
52908750--52908894	64	2.2	64	80	12	188	20	11	36	31	1.88
52912975--52913029	27	2.0	27	96	0	101	47	10	20	21	1.80
52913797--52913863	27	2.5	27	73	4	64	22	22	32	22	1.98
52915107--52915189	27	3.1	27	77	3	69	22	33	24	19	1.97
52915543--52915642	3	33.0	3	85	2	137	61	4	32	3	1.30
52922573--52922606	17	2.0	17	88	0	50	23	14	5	55	1.61
52924659--52925432	277	2.8	277	88	2	1167	27	20	16	35	1.94
52928895--52928934	20	2.0	20	85	0	53	42	20	7	30	1.79
52931424--52931509	42	2.0	42	100	0	172	39	9	16	34	1.80
52935177--52935206	5	5.8	5	92	7	51	0	0	83	16	0.65
52935958--52936053	21	4.3	21	69	17	68	56	3	1	39	1.22
52935957--52936027	22	3.3	22	78	4	90	54	4	0	40	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52938948--52938981	13	2.6	13	95	0	59	79	0	0	20	0.73
52938948--52938981	6	5.3	6	86	13	50	79	0	0	20	0.73
52938968--52939006	17	2.3	17	81	0	51	71	0	0	28	0.86
52948517--52948553	16	2.3	17	81	13	51	51	0	5	43	1.24
52948658--52948755	31	3.3	31	65	21	91	40	6	12	40	1.67
52948645--52948776	58	2.3	58	96	2	239	36	9	10	43	1.71
52948676--52948771	31	3.2	31	63	25	80	38	10	8	42	1.69
52948797--52948832	16	2.2	16	90	9	56	72	0	2	25	0.98
52948797--52948833	17	2.2	16	90	4	56	72	0	2	24	0.97
52952344--52952444	51	2.0	51	98	0	193	37	8	9	43	1.69
52953995--52954069	20	3.8	20	76	11	73	34	17	24	24	1.96
52954956--52955019	25	2.5	24	87	7	74	53	7	12	26	1.66
52954956--52955005	25	2.0	25	96	0	91	50	8	14	28	1.70
52956644--52956675	14	2.1	16	88	11	50	53	0	3	43	1.16
52962986--52963039	19	2.7	20	83	16	67	50	3	11	35	1.56
52962986--52963042	20	2.8	20	80	17	64	49	3	10	36	1.55
52965858--52966228	105	3.6	104	92	1	602	19	20	30	29	1.97
52969275--52969313	17	2.3	17	100	0	78	35	12	28	23	1.91
52974142--52974180	19	2.1	19	85	9	53	61	5	0	33	1.18
52980035--52980225	50	3.7	50	90	4	265	21	32	20	25	1.98
52986750--52987087	50	6.6	50	83	2	370	23	28	20	27	1.99
52986750--52987095	150	2.3	153	83	5	414	23	28	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53007367--53007395	12	2.3	13	94	5	51	68	13	6	10	1.37
53009459--53009489	4	7.8	4	100	0	62	77	0	22	0	0.77
53013425--53013538	62	1.9	59	83	8	149	42	3	5	49	1.42
53014752--53014791	15	2.5	17	76	23	50	67	5	2	25	1.23
53014761--53014792	15	2.1	15	94	0	55	68	3	0	28	1.04
53015548--53015594	10	4.6	10	85	12	51	34	0	6	59	1.23
53024550--53024789	41	5.7	41	73	15	181	35	27	17	20	1.95
53024595--53024830	83	2.8	84	95	0	420	36	26	15	21	1.94
53026256--53026299	22	2.0	21	83	12	54	40	0	0	59	0.98
53027842--53027881	10	3.8	10	81	12	53	37	0	5	57	1.21
53029116--53029169	26	2.1	26	100	0	108	22	12	25	38	1.90
53035366--53035423	21	2.8	21	89	0	89	32	5	12	50	1.62
53042009--53042036	8	3.5	8	100	0	56	25	0	21	53	1.46
53047367--53047484	30	3.9	29	80	13	123	26	22	26	24	2.00
53047592--53047663	26	2.8	26	86	0	90	40	26	19	13	1.89
53047691--53047836	27	5.4	27	81	4	152	18	20	18	42	1.89
53048499--53048550	5	10.4	5	83	8	70	53	0	46	0	1.00
53055899--53055939	21	2.0	21	90	0	64	29	2	2	65	1.18
53056367--53056724	84	4.3	84	88	3	503	36	24	16	22	1.94
53056367--53056724	42	8.6	41	76	8	323	36	24	16	22	1.94
53057712--53057746	13	2.7	13	86	0	52	40	11	11	37	1.77
53058373--53058487	30	4.0	29	83	6	137	26	23	26	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53061070--53061164	33	3.0	33	81	7	90	25	20	26	28	1.99
53061105--53061189	30	2.9	30	83	10	104	23	20	25	30	1.98
53061301--53061372	26	2.8	26	86	0	99	41	26	18	13	1.87
53061542--53061683	54	2.6	53	83	8	155	17	16	20	45	1.86
53061543--53061683	27	5.2	27	82	6	128	17	17	20	45	1.86
53064979--53065019	17	2.3	19	80	16	52	31	2	2	63	1.20
53111005--53111132	25	5.1	25	87	1	168	29	22	22	25	1.99
53124684--53124732	24	2.0	24	88	0	71	46	6	10	36	1.63
53125765--53125831	28	2.4	28	85	5	82	23	8	7	59	1.53
53129752--53129778	4	6.8	4	100	0	54	77	0	0	22	0.76
53132921--53133009	23	4.0	22	74	12	74	30	16	14	38	1.89
53141144--53141198	25	2.2	25	83	0	74	30	21	20	27	1.98
53141177--53141234	25	2.3	25	82	5	73	34	24	17	24	1.96
53145228--53145289	31	2.0	31	100	0	124	19	19	6	54	1.65
53147218--53147263	8	5.8	8	78	19	51	13	21	4	60	1.49
53147217--53147263	16	2.9	16	84	6	60	12	21	4	61	1.48
53147472--53147706	50	4.6	50	75	4	168	25	28	19	27	1.98
53151063--53151096	13	2.6	13	90	9	52	32	20	2	44	1.67
53151122--53151161	13	3.1	13	88	0	62	42	22	0	35	1.54
53152360--53152397	20	1.9	20	84	10	51	47	5	0	47	1.24
53163225--53163286	32	1.9	32	100	0	124	35	20	4	38	1.74
53173536--53173737	47	4.3	47	89	0	260	30	13	20	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53178453--53178514	26	2.3	27	86	8	83	19	16	22	41	1.89
53178456--53178514	27	2.2	26	85	8	75	20	16	20	42	1.89
53188263--53189290	100	10.3	101	83	4	1268	23	19	22	34	1.97
53188263--53189290	199	5.2	200	85	1	1307	23	19	22	34	1.97
53188289--53189286	299	3.3	298	91	1	1495	23	18	23	34	1.96
53188290--53189289	50	20.1	50	68	6	476	24	18	23	34	1.97
53196081--53196114	16	2.3	15	90	10	52	35	5	20	38	1.77
53201978--53202073	25	3.8	26	75	15	85	43	13	12	30	1.81
53205143--53205375	50	4.7	50	79	8	217	22	28	20	28	1.98
53206084--53206271	50	3.8	50	85	2	234	23	30	20	25	1.98
53206037--53206270	50	4.7	50	81	4	215	23	29	20	27	1.98
53208333--53208616	50	5.6	50	83	3	266	21	29	22	26	1.99
53209270--53209457	50	3.8	50	86	2	243	22	29	21	26	1.99
53215574--53215871	50	5.9	50	81	5	269	23	28	20	27	1.99
53227516--53227713	57	3.5	57	78	5	188	28	25	14	31	1.95
53227838--53227945	52	2.1	53	87	1	155	25	25	13	35	1.93
53234541--53234733	50	3.9	50	83	0	206	27	19	29	23	1.98
53241684--53241749	30	2.2	29	84	10	80	39	7	21	31	1.81
53247336--53247377	20	2.0	20	86	4	57	42	9	9	38	1.70
53254101--53254158	24	2.4	24	80	11	73	46	18	13	20	1.83
53254145--53254179	18	1.9	18	94	0	61	42	17	5	34	1.73
53255290--53255333	21	2.0	21	82	4	52	36	15	22	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53257631--53257693	29	2.2	29	97	0	117	12	34	12	39	1.82
53257832--53257863	16	2.1	15	94	5	55	31	3	18	46	1.65
53258247--53258442	47	4.3	46	86	8	260	48	12	5	33	1.65
53261542--53261581	14	2.9	14	84	0	53	42	17	7	32	1.77
53261507--53261573	34	1.9	35	84	3	91	44	13	8	32	1.75
53263570--53263603	17	1.9	18	88	5	52	38	11	5	44	1.65
53264402--53264449	23	2.1	23	96	0	87	18	35	6	39	1.76
53268130--53268204	33	2.2	34	92	2	125	42	13	6	37	1.70
53269910--53270007	18	5.3	18	69	18	67	10	22	3	64	1.38
53273453--53273509	17	3.2	18	80	14	73	35	14	7	43	1.72

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199